AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017778.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017778.01.T01 MTR_3g111920 98.810 84 1 0 1 84 1 84 1.92e-58 173
MsG0380017778.01.T01 MTR_1g022290 49.398 83 39 1 2 84 6 85 3.18e-26 92.8
MsG0380017778.01.T01 MTR_3g116720 53.846 65 30 0 3 67 16 80 7.71e-22 81.3
MsG0380017778.01.T01 MTR_8g077360 53.333 75 30 2 2 76 4 73 2.70e-21 79.7
MsG0380017778.01.T01 MTR_8g077380 53.623 69 31 1 2 70 4 71 4.08e-21 79.0
MsG0380017778.01.T01 MTR_8g077390 53.623 69 31 1 2 70 4 71 4.08e-21 79.0
MsG0380017778.01.T01 MTR_3g111880 51.471 68 33 0 3 70 7 74 7.06e-21 79.0
MsG0380017778.01.T01 MTR_8g077420 55.714 70 29 2 3 72 5 72 9.70e-21 78.2
MsG0380017778.01.T01 MTR_5g020170 43.750 80 41 1 1 76 17 96 1.21e-20 78.6
MsG0380017778.01.T01 MTR_7g089210 54.098 61 28 0 6 66 15 75 1.52e-18 73.2
MsG0380017778.01.T01 MTR_6g004250 46.875 64 34 0 2 65 9 72 5.57e-18 71.2
MsG0380017778.01.T01 MTR_5g020540 53.226 62 28 1 2 63 3 63 5.70e-18 70.9
MsG0380017778.01.T01 MTR_1g033600 40.299 67 40 0 3 69 12 78 6.37e-16 67.8
MsG0380017778.01.T01 MTR_3g013440 43.056 72 40 1 2 72 9 80 3.38e-15 64.7
MsG0380017778.01.T01 MTR_5g081860 42.857 63 36 0 3 65 27 89 2.32e-13 63.2
MsG0380017778.01.T01 MTR_8g063870 42.857 63 36 0 3 65 8 70 6.52e-13 62.0
MsG0380017778.01.T01 MTR_5g069710 44.444 63 35 0 3 65 29 91 1.61e-12 61.2
MsG0380017778.01.T01 MTR_7g067080 46.032 63 34 0 3 65 35 97 2.97e-12 60.5
MsG0380017778.01.T01 MTR_3g462790 43.284 67 38 0 3 69 43 109 4.03e-12 60.1
MsG0380017778.01.T01 MTR_8g063600 39.683 63 38 0 3 65 10 72 4.99e-12 59.7
MsG0380017778.01.T01 MTR_1g111830 34.286 70 46 0 3 72 24 93 1.81e-11 57.8
MsG0380017778.01.T01 MTR_1g086180 53.571 56 25 1 2 56 10 65 3.72e-11 54.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017778.01.T01 AT1G75250 49.398 83 38 1 3 81 12 94 2.92e-23 85.5
MsG0380017778.01.T01 AT4G39250 48.780 82 40 1 3 84 14 93 3.85e-23 85.1
MsG0380017778.01.T01 AT1G75250 57.812 64 27 0 3 66 12 75 4.78e-23 85.5
MsG0380017778.01.T01 AT1G19510 59.016 61 25 0 6 66 15 75 1.03e-21 81.6
MsG0380017778.01.T01 AT2G21650 45.122 82 44 1 3 84 14 94 4.40e-19 74.7
MsG0380017778.01.T01 AT5G05790 50.000 64 32 0 3 66 31 94 2.51e-16 71.2
MsG0380017778.01.T01 AT5G05790 50.000 64 32 0 3 66 31 94 2.51e-16 71.2
MsG0380017778.01.T01 AT2G18328 51.667 60 29 0 7 66 15 74 5.23e-16 66.2
MsG0380017778.01.T01 AT5G08520 40.244 82 49 0 3 84 12 93 7.19e-15 67.8
MsG0380017778.01.T01 AT3G11280 44.444 63 35 0 3 65 33 95 1.73e-14 66.2
MsG0380017778.01.T01 AT3G11280 44.444 63 35 0 3 65 33 95 1.73e-14 66.2
MsG0380017778.01.T01 AT4G36570 61.364 44 17 0 3 46 12 55 9.43e-14 60.1
MsG0380017778.01.T01 AT2G38090 46.032 63 34 0 3 65 29 91 1.24e-13 64.3
MsG0380017778.01.T01 AT5G58900 46.032 63 34 0 3 65 34 96 1.52e-13 63.9
MsG0380017778.01.T01 AT1G49010 38.667 75 43 1 3 74 8 82 1.19e-12 61.6
MsG0380017778.01.T01 AT5G01200 39.506 81 48 1 3 82 30 110 3.38e-11 57.4
MsG0380017778.01.T01 AT5G04760 39.683 63 37 1 3 65 6 67 7.94e-11 55.8

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAACAATGGAAGGCAATT+TGG 0.250643 3:-100571741 MsG0380017778.01.T01:CDS
TGCCACCGATTTGGATCTTC+TGG 0.260812 3:+100571900 None:intergenic
AAATCCCACTGCCAACTTAC+AGG 0.308746 3:-100571782 MsG0380017778.01.T01:CDS
GCCACATGTTGCCACCGATT+TGG 0.310871 3:+100571891 None:intergenic
GAGGATGCACTTGCAGTATA+TGG 0.363746 3:-100571924 MsG0380017778.01.T01:CDS
GACAAATTAGCAGCATGGGT+TGG 0.508959 3:-100571971 None:intergenic
AATCCCACTGCCAACTTACA+GGG 0.517510 3:-100571781 MsG0380017778.01.T01:CDS
CCAACTTACAGGGGAGGTGC+TGG 0.534339 3:-100571771 MsG0380017778.01.T01:CDS
CTCCCCTGTAAGTTGGCAGT+GGG 0.537457 3:+100571778 None:intergenic
CCAGCACCTCCCCTGTAAGT+TGG 0.540006 3:+100571771 None:intergenic
CAACATGTGGCTAATGCTGT+TGG 0.541304 3:-100571879 MsG0380017778.01.T01:CDS
CCTCCCCTGTAAGTTGGCAG+TGG 0.556127 3:+100571777 None:intergenic
ATGGTCCAGAAGATCCAAAT+CGG 0.560223 3:-100571905 MsG0380017778.01.T01:CDS
GGCAATTTGGCAATGAGCAA+AGG 0.562652 3:-100571728 MsG0380017778.01.T01:CDS
CATGTGGCTAATGCTGTTGG+TGG 0.579036 3:-100571876 MsG0380017778.01.T01:CDS
TCCAAATCGGTGGCAACATG+TGG 0.582584 3:-100571892 MsG0380017778.01.T01:CDS
GCTGGTATCAATATCAACAA+TGG 0.592424 3:-100571753 MsG0380017778.01.T01:CDS
GTATCAATATCAACAATGGA+AGG 0.611037 3:-100571749 MsG0380017778.01.T01:CDS
TTCGAATGAGATCTTCCTTG+AGG 0.620556 3:+100571817 None:intergenic
TGGTGGAAAATCCATACAAG+AGG 0.660309 3:-100571859 MsG0380017778.01.T01:CDS
AATGCATTACGAGATCCTCA+AGG 0.660853 3:-100571832 MsG0380017778.01.T01:CDS
ATCCCACTGCCAACTTACAG+GGG 0.669431 3:-100571780 MsG0380017778.01.T01:CDS
CCACTGCCAACTTACAGGGG+AGG 0.671704 3:-100571777 MsG0380017778.01.T01:CDS
GTCCAGAAGATCCAAATCGG+TGG 0.678303 3:-100571902 MsG0380017778.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTATCAATATCAACAATGGA+AGG - Chr3:100571933-100571952 MsG0380017778.01.T01:CDS 30.0%
ATCAACAATGGAAGGCAATT+TGG - Chr3:100571941-100571960 MsG0380017778.01.T01:CDS 35.0%
GCTGGTATCAATATCAACAA+TGG - Chr3:100571929-100571948 MsG0380017778.01.T01:CDS 35.0%
! ATGCATTTTCACCTCTTGTA+TGG + Chr3:100571837-100571856 None:intergenic 35.0%
AATGCATTACGAGATCCTCA+AGG - Chr3:100571850-100571869 MsG0380017778.01.T01:CDS 40.0%
ATGGTCCAGAAGATCCAAAT+CGG - Chr3:100571777-100571796 MsG0380017778.01.T01:CDS 40.0%
TGGTGGAAAATCCATACAAG+AGG - Chr3:100571823-100571842 MsG0380017778.01.T01:CDS 40.0%
TTCGAATGAGATCTTCCTTG+AGG + Chr3:100571868-100571887 None:intergenic 40.0%
! AGAAGAGAACAGACGTTTTG+AGG - Chr3:100571739-100571758 MsG0380017778.01.T01:CDS 40.0%
AAATCCCACTGCCAACTTAC+AGG - Chr3:100571900-100571919 MsG0380017778.01.T01:CDS 45.0%
AATCCCACTGCCAACTTACA+GGG - Chr3:100571901-100571920 MsG0380017778.01.T01:CDS 45.0%
CAACATGTGGCTAATGCTGT+TGG - Chr3:100571803-100571822 MsG0380017778.01.T01:CDS 45.0%
GAGGATGCACTTGCAGTATA+TGG - Chr3:100571758-100571777 MsG0380017778.01.T01:CDS 45.0%
GGCAATTTGGCAATGAGCAA+AGG - Chr3:100571954-100571973 MsG0380017778.01.T01:CDS 45.0%
ATCCCACTGCCAACTTACAG+GGG - Chr3:100571902-100571921 MsG0380017778.01.T01:CDS 50.0%
CATGTGGCTAATGCTGTTGG+TGG - Chr3:100571806-100571825 MsG0380017778.01.T01:CDS 50.0%
GTCCAGAAGATCCAAATCGG+TGG - Chr3:100571780-100571799 MsG0380017778.01.T01:CDS 50.0%
TCCAAATCGGTGGCAACATG+TGG - Chr3:100571790-100571809 MsG0380017778.01.T01:CDS 50.0%
!! TGCCACCGATTTGGATCTTC+TGG + Chr3:100571785-100571804 None:intergenic 50.0%
! CTCCCCTGTAAGTTGGCAGT+GGG + Chr3:100571907-100571926 None:intergenic 55.0%
! GCCACATGTTGCCACCGATT+TGG + Chr3:100571794-100571813 None:intergenic 55.0%
CCACTGCCAACTTACAGGGG+AGG - Chr3:100571905-100571924 MsG0380017778.01.T01:CDS 60.0%
CCAGCACCTCCCCTGTAAGT+TGG + Chr3:100571914-100571933 None:intergenic 60.0%
! CCAACTTACAGGGGAGGTGC+TGG - Chr3:100571911-100571930 MsG0380017778.01.T01:CDS 60.0%
! CCTCCCCTGTAAGTTGGCAG+TGG + Chr3:100571908-100571927 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 100571725 100571979 100571725 ID=MsG0380017778.01;Name=MsG0380017778.01
Chr3 mRNA 100571725 100571979 100571725 ID=MsG0380017778.01.T01;Parent=MsG0380017778.01;Name=MsG0380017778.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|84
Chr3 exon 100571725 100571979 100571725 ID=MsG0380017778.01.T01:exon:2361;Parent=MsG0380017778.01.T01
Chr3 CDS 100571725 100571979 100571725 ID=MsG0380017778.01.T01:cds;Parent=MsG0380017778.01.T01
Gene Sequence

>MsG0380017778.01.T01

ATGGGTTGGACAAGAGAAGAGAACAGACGTTTTGAGGATGCACTTGCAGTATATGGTCCAGAAGATCCAAATCGGTGGCAACATGTGGCTAATGCTGTTGGTGGAAAATCCATACAAGAGGTGAAAATGCATTACGAGATCCTCAAGGAAGATCTCATTCGAATTGAGCATGATCAAATCCCACTGCCAACTTACAGGGGAGGTGCTGGTATCAATATCAACAATGGAAGGCAATTTGGCAATGAGCAAAGGTAG
Protein sequence

>MsG0380017778.01.T01

MGWTREENRRFEDALAVYGPEDPNRWQHVANAVGGKSIQEVKMHYEILKEDLIRIEHDQIPLPTYRGGAGININNGRQFGNEQR*